Gene detail

Detailed information of evm.model.Ap4.1137 in Astrangia poculata

Genomic Location: Ap4:11802552...11819685
NR annotation: CAH3031629.1, unnamed protein product [Pocillopora meandrina]
Species abbreviation APOCU · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

evm.model.Ap4.1137

atgccggcgattggagttatttaccctccaccggaggtgagaaatatcgttgacaagactgcaagctttgttgccagaaatggtcccgagtttgagtcaagaatcagacagaatgaaattaacaatcccaagtttaacttcctgaatcctggagatccctaccatgcatacttccagcaaaaagttttagatataaaagagcaagatggaagagagcaaggctcatgtaaattccagcgtgtccactgttccctccaaaagcccaagcctcttatgcaaaccccagtgactattgctgaaccaatagtacccaaggaaccaccccctgagtttgaattcctggctgatccaccgactatatctgcactagatctgaacattgtaaagctgactgcacaatttgtggcaagaaatggacgtcagtttctaaccaatcttatgaatagagaacaaaggaactatcagtttgatttcttacgaccacaacacagtttgttcaactatttcaccaagcttgtggagcagtatacaaaggtgttgattccaccaagtgatgtcaaagagaagttgcaaaaggatgcaaacaaaccaaaagagatcctagatcgtgttatgtatcgagtggagtggatcaggcaccaagaaagagagaaaaagaaattggaagatgaaaaagaaaaggaaagagttgcatttgcacaagtggactggcatgactttgttgtggtggaaacagtggacttcaaagatcatgaaacagctaatttgcctccaccagtgagtagagaacaacttggagccaggatattggcacaggaacgatatgaacaaacacaggatgaaggagctcctcctgatgatatggaagtcaacatggatgttgagatggaagtcgatgaacctgaaccaccagtcttacaacctccaccccctccacctccccctaaggacgcaagtgcgaagaatgtagactcaaatgaggtacctcttccaccaatcccctctgagcccggccccaaaccacctctacctcccacagcccctggtgcaaacatccaaatccgacgaggttatgatcccaaggctcctaaagcagctgcacctcaggtcctgcctgataagttcgttatctcacccatcactggtgagcgggtgcctgcagagagcatggatgaacacatgaagatcagtctgttggatccgcgctggagagagcagcgcgatcgagcgttacaggagaggaaggaacaagaacaagtctttgctgaaggtatgtccattggaagcagtctgaagcagcttgccgagcgccgtacggatatcttcggagctggagacgaagaaacaatgatcggtaaaaagatcggcgaagaagaaattcggaaaccagagaaggtcacgtgggatggtcacactgcgtccatggcggccacgtcacgcttggctcaacaaggcgtgacaatagaacagcagatcgaggccatacacaagtctaagggactcacgccatcggaagagagagaaagaatcggaccaaaaattccacagcaagagagacctcctggaacacaacgaccaccgaccacggccatcccgccccctccctccatgagtacgatgtctacctcacgcgcgcctcctccaccccctatgtcaacgatgatgaatttaccaccacctccccccatgctcccgcctggtggacccccacagtttttgggtataccgcctcctccgcccccgggtggaatcccacggatgccacccccacgatttgttaaccccaacccgccagttgctcctcccatgtcaagcaagagagatgcagaaggggacgatatggcagggaagaagtccagaactgagccggctgaagcgaatcttattcctgaagatgaattcctctcctcccatccgaatccagtcacatttggtgtccagattcctcacatgccagacaagaccgagtggaaactggacggcaataccgtccgtcttacattaccgcttacagatcaggtgtctgtgatcaaggcaaagcttcacgagattacaggaatgccagctggcaaacagaagctacagcttgggggaattttcatcaaagattccaactcgctggcttattataacgttactcctacaagcatagtgcagctacagctcaaagaacgtggaggaagaaagaaatag

Transcript

evm.model.Ap4.1137

ATGCCGGCGATTGGAGTTATTTACCCTCCACCGGAGGTGAGAAATATCGTTGACAAGACTGCAAGCTTTGTTGCCAGAAATGGTCCCGAGTTTGAGTCAAGAATCAGACAGAATGAAATTAACAATCCCAAGTTTAACTTCCTGAATCCTGGAGATCCCTACCATGCATACTTCCAGCAAAAAGTTTTAGATATAAAAGAGCAAGATGGAAGAGAGCAAGGCTCATGTAAATTCCAGCGTGTCCACTGTTCCCTCCAAAAGCCCAAGCCTCTTATGCAAACCCCAGTGACTATTGCTGAACCAATAGTACCCAAGGAACCACCCCCTGAGTTTGAATTCCTGGCTGATCCACCGACTATATCTGCACTAGATCTGAACATTGTAAAGCTGACTGCACAATTTGTGGCAAGAAATGGACGTCAGTTTCTAACCAATCTTATGAATAGAGAACAAAGGAACTATCAGTTTGATTTCTTACGACCACAACACAGTTTGTTCAACTATTTCACCAAGCTTGTGGAGCAGTATACAAAGGTGTTGATTCCACCAAGTGATGTCAAAGAGAAGTTGCAAAAGGATGCAAACAAACCAAAAGAGATCCTAGATCGTGTTATGTATCGAGTGGAGTGGATCAGGCACCAAGAAAGAGAGAAAAAGAAATTGGAAGATGAAAAAGAAAAGGAAAGAGTTGCATTTGCACAAGTGGACTGGCATGACTTTGTTGTGGTGGAAACAGTGGACTTCAAAGATCATGAAACAGCTAATTTGCCTCCACCAGTGAGTAGAGAACAACTTGGAGCCAGGATATTGGCACAGGAACGATATGAACAAACACAGGATGAAGGAGCTCCTCCTGATGATATGGAAGTCAACATGGATGTTGAGATGGAAGTCGATGAACCTGAACCACCAGTCTTACAACCTCCACCCCCTCCACCTCCCCCTAAGGACGCAAGTGCGAAGAATGTAGACTCAAATGAGGTACCTCTTCCACCAATCCCCTCTGAGCCCGGCCCCAAACCACCTCTACCTCCCACAGCCCCTGGTGCAAACATCCAAATCCGACGAGGTTATGATCCCAAGGCTCCTAAAGCAGCTGCACCTCAGGTCCTGCCTGATAAGTTCGTTATCTCACCCATCACTGGTGAGCGGGTGCCTGCAGAGAGCATGGATGAACACATGAAGATCAGTCTGTTGGATCCGCGCTGGAGAGAGCAGCGCGATCGAGCGTTACAGGAGAGGAAGGAACAAGAACAAGTCTTTGCTGAAGGTATGTCCATTGGAAGCAGTCTGAAGCAGCTTGCCGAGCGCCGTACGGATATCTTCGGAGCTGGAGACGAAGAAACAATGATCGGTAAAAAGATCGGCGAAGAAGAAATTCGGAAACCAGAGAAGGTCACGTGGGATGGTCACACTGCGTCCATGGCGGCCACGTCACGCTTGGCTCAACAAGGCGTGACAATAGAACAGCAGATCGAGGCCATACACAAGTCTAAGGGACTCACGCCATCGGAAGAGAGAGAAAGAATCGGACCAAAAATTCCACAGCAAGAGAGACCTCCTGGAACACAACGACCACCGACCACGGCCATCCCGCCCCCTCCCTCCATGAGTACGATGTCTACCTCACGCGCGCCTCCTCCACCCCCTATGTCAACGATGATGAATTTACCACCACCTCCCCCCATGCTCCCGCCTGGTGGACCCCCACAGTTTTTGGGTATACCGCCTCCTCCGCCCCCGGGTGGAATCCCACGGATGCCACCCCCACGATTTGTTAACCCCAACCCGCCAGTTGCTCCTCCCATGTCAAGCAAGAGAGATGCAGAAGGGGACGATATGGCAGGGAAGAAGTCCAGAACTGAGCCGGCTGAAGCGAATCTTATTCCTGAAGATGAATTCCTCTCCTCCCATCCGAATCCAGTCACATTTGGTGTCCAGATTCCTCACATGCCAGACAAGACCGAGTGGAAACTGGACGGCAATACCGTCCGTCTTACATTACCGCTTACAGATCAGGTGTCTGTGATCAAGGCAAAGCTTCACGAGATTACAGGAATGCCAGCTGGCAAACAGAAGCTACAGCTTGGGGGAATTTTCATCAAAGATTCCAACTCGCTGGCTTATTATAACGTTACTCCTACAAGCATAGTGCAGCTACAGCTCAAAGAACGTGGAGGAAGAAAGAAATAG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A2VDN6	Splicing factor 3A subunit 1 OS=Bos taurus OX=9913 GN=SF3A1 PE=2 SV=1
Q15459	Splicing factor 3A subunit 1 OS=Homo sapiens OX=9606 GN=SF3A1 PE=1 SV=1
Q8K4Z5	Splicing factor 3A subunit 1 OS=Mus musculus OX=10090 GN=Sf3a1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005100 (this species only)
Ubiquitin family	ULD\|UBL\|NEDD8 · all ubiquitin genes in this species
Ubiquitin family	ULD\|UFD/UBQ\|UBQ_Other · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12230 all species →	PRP21_like_P	Pre-mRNA splicing factor PRP21 like protein	Family	Interproscan
PF00240 all species →	ubiquitin	Ubiquitin family	Domain	Interproscan
PF01805 all species →	Surp	Surp module	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000626 all species →	Domain	Ubiquitin-like domain	Interproscan
IPR035967 all species →	Homologous_superfamily	SWAP/Surp superfamily	Interproscan
IPR022030 all species →	Domain	Splicing factor 3A subunit 1, conserved domain	Interproscan
IPR035563 all species →	Domain	Splicing factor 3A subunit 1, ubiquitin domain	Interproscan
IPR000061 all species →	Domain	SWAP/Surp	Interproscan
IPR045146 all species →	Family	Splicing factor 3A subunit 1	Interproscan
IPR029071 all species →	Homologous_superfamily	Ubiquitin-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15316 all species →	SPLICEOSOME ASSOCIATED PROTEIN 114/SWAP SPLICING FACTOR-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0006396 all species →	Biological Process	RNA processing	Interproscan
GO:0000381 all species →	Biological Process	regulation of alternative mRNA splicing, via spliceosome	Interproscan
GO:0005686 all species →	Cellular Component	U2 snRNP	Interproscan
GO:0045292 all species →	Biological Process	mRNA cis splicing, via spliceosome	Interproscan
GO:0071004 all species →	Cellular Component	U2-type prespliceosome	Interproscan
GO:0071013 all species →	Cellular Component	catalytic step 2 spliceosome	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K12825	SF3A1, SAP114; splicing factor 3A subunit 1	-	Spliceosome	ko03041	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.